The research problem is the following. Is there a correlation between the climatic variability of temperature, rainfall and relative humidity with the prevalence of malaria in Iquitos, during the period 2000-2015? and the objective was to determine the correlation between climatic variability of temperature, rainfall and relative humidity with the prevalence of vivax and falciparum malaria in Iquitos inhabitants, during the period 2000-2015, the study is quantitative, of applied type, and the non-experimental design of a retrospective type. The population was for all patients infected with vivax malaria and falciparum, from the year 2000 to 2015, registered in the NOTI database (confirmed cases of malaria by diagnosis of gold standard / thick blood) reported from the entire health network of Iquitos (hospitals, clinics and IPRESS). he data were analyzed with two Statistical Sftware the SPSS-23 and the MINITAB 17 descriptive statistics and coefficient of variation of the sperman range and Pearson correlation, with α = 0.05 and confidence level of 95, Results: There is a highly significant correlation between temperature Minimum and vivax malaria; There is a highly significant correlation between Relative Humidity and vivax malaria; There is no correlation between maximum temperature and rainfall and malaria Vivax (p = 0.001). There is a highly significant correlation between Minimum Temperature and falciparum malaria, there is a highly significant correlation between Mean Temperature and falciparum malaria, there is a highly significant correlation between Relative Humidity and falciparum malaria, there is no correlation between maximum temperature and rainfall and falciparum malaria (p = 0.001) .